MCL coexpression mm9:1348

Phase1 CAGE Peaks

	Short description
Mm9::chr13:52692230..52692280,+	p1@Syk
Mm9::chr17:29497854..29497865,+	p4@Fgd2
Mm9::chr17:29497868..29497885,+	p1@Fgd2
Mm9::chr17:29497901..29497913,+	p2@Fgd2
Mm9::chr5:135089861..135089869,+	p@chr5:135089861..135089869 +
Mm9::chr6:29479277..29479296,+	p2@Irf5

Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

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GO ID	GO name	FDR corrected p-value
GO:0046645	positive regulation of gamma-delta T cell activation	0.00918241562950581
GO:0045586	regulation of gamma-delta T cell differentiation	0.00918241562950581
GO:0045588	positive regulation of gamma-delta T cell differentiation	0.00918241562950581
GO:0046643	regulation of gamma-delta T cell activation	0.00918241562950581
GO:0043366	beta selection	0.00918241562950581
GO:0046629	gamma-delta T cell activation	0.00918241562950581
GO:0042492	gamma-delta T cell differentiation	0.00918241562950581
GO:0032632	interleukin-3 production	0.00918241562950581
GO:0045423	regulation of granulocyte macrophage colony-stimulating factor biosynthetic process	0.00918241562950581
GO:0042223	interleukin-3 biosynthetic process	0.00918241562950581
GO:0046638	positive regulation of alpha-beta T cell differentiation	0.00918241562950581
GO:0045399	regulation of interleukin-3 biosynthetic process	0.00918241562950581
GO:0032604	granulocyte macrophage colony-stimulating factor production	0.00918241562950581
GO:0045425	positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process	0.00918241562950581
GO:0045401	positive regulation of interleukin-3 biosynthetic process	0.00918241562950581
GO:0042253	granulocyte macrophage colony-stimulating factor biosynthetic process	0.00918241562950581
GO:0043306	positive regulation of mast cell degranulation	0.00932765716338028
GO:0046637	regulation of alpha-beta T cell differentiation	0.00932765716338028
GO:0043304	regulation of mast cell degranulation	0.00932765716338028
GO:0001820	serotonin secretion	0.00932765716338028
GO:0043302	positive regulation of leukocyte degranulation	0.00932765716338028
GO:0004716	receptor signaling protein tyrosine kinase activity	0.0102015660325309
GO:0043300	regulation of leukocyte degranulation	0.0102015660325309
GO:0045579	positive regulation of B cell differentiation	0.0102015660325309
GO:0009966	regulation of signal transduction	0.0108810742005712
GO:0045921	positive regulation of exocytosis	0.0108810742005712
GO:0019815	B cell receptor complex	0.0108810742005712
GO:0050853	B cell receptor signaling pathway	0.0110559695686803
GO:0043303	mast cell degranulation	0.0110559695686803
GO:0002448	mast cell mediated immunity	0.0110559695686803
GO:0046641	positive regulation of alpha-beta T cell proliferation	0.0110559695686803
GO:0046635	positive regulation of alpha-beta T cell activation	0.0122398670223687
GO:0042101	T cell receptor complex	0.0125888876562747
GO:0046640	regulation of alpha-beta T cell proliferation	0.0125888876562747
GO:0045577	regulation of B cell differentiation	0.0125888876562747
GO:0043299	leukocyte degranulation	0.0132308385590431
GO:0007257	activation of JNK activity	0.0132308385590431
GO:0046634	regulation of alpha-beta T cell activation	0.013806810798841
GO:0043507	positive regulation of JNK activity	0.013806810798841
GO:0045576	mast cell activation	0.0139853536112926
GO:0045582	positive regulation of T cell differentiation	0.0139853536112926
GO:0046633	alpha-beta T cell proliferation	0.0139853536112926
GO:0050850	positive regulation of calcium-mediated signaling	0.0141399715230473
GO:0050848	regulation of calcium-mediated signaling	0.0141399715230473
GO:0019814	immunoglobulin complex	0.0141399715230473
GO:0045621	positive regulation of lymphocyte differentiation	0.0152939658847723
GO:0043506	regulation of JNK activity	0.0152939658847723
GO:0002444	myeloid leukocyte mediated immunity	0.0152939658847723
GO:0019370	leukotriene biosynthetic process	0.015660162802526
GO:0043450	alkene biosynthetic process	0.015660162802526
GO:0045058	T cell selection	0.0156962368925117
GO:0006691	leukotriene metabolic process	0.0156962368925117
GO:0045580	regulation of T cell differentiation	0.0156962368925117
GO:0043449	alkene metabolic process	0.0160143201507925
GO:0017157	regulation of exocytosis	0.0160143201507925
GO:0001772	immunological synapse	0.0174138406286009
GO:0019722	calcium-mediated signaling	0.0174138406286009
GO:0046632	alpha-beta T cell differentiation	0.0174138406286009
GO:0050731	positive regulation of peptidyl-tyrosine phosphorylation	0.0174138406286009
GO:0045937	positive regulation of phosphate metabolic process	0.0176439705618541
GO:0042327	positive regulation of phosphorylation	0.0176439705618541
GO:0045619	regulation of lymphocyte differentiation	0.0181474588829467
GO:0046456	icosanoid biosynthetic process	0.0186348783617508
GO:0050871	positive regulation of B cell activation	0.0188647119334535
GO:0001934	positive regulation of protein amino acid phosphorylation	0.0188647119334535
GO:0002274	myeloid leukocyte activation	0.0188647119334535
GO:0033240	positive regulation of amine metabolic process	0.0188647119334535
GO:0045764	positive regulation of amino acid metabolic process	0.0188647119334535
GO:0050851	antigen receptor-mediated signaling pathway	0.0188647119334535
GO:0042102	positive regulation of T cell proliferation	0.0188647119334535
GO:0006690	icosanoid metabolic process	0.0206621704321326
GO:0046631	alpha-beta T cell activation	0.0207039760409873
GO:0050794	regulation of cellular process	0.0207039760409873
GO:0002429	immune response-activating cell surface receptor signaling pathway	0.0207039760409873
GO:0042108	positive regulation of cytokine biosynthetic process	0.0207039760409873
GO:0046777	protein amino acid autophosphorylation	0.0207039760409873
GO:0051050	positive regulation of transport	0.0207039760409873
GO:0050730	regulation of peptidyl-tyrosine phosphorylation	0.0207039760409873
GO:0002768	immune response-regulating cell surface receptor signaling pathway	0.0207039760409873
GO:0030183	B cell differentiation	0.0207039760409873
GO:0016540	protein autoprocessing	0.0207039760409873
GO:0000187	activation of MAPK activity	0.0207039760409873
GO:0032946	positive regulation of mononuclear cell proliferation	0.0207039760409873
GO:0002757	immune response-activating signal transduction	0.0207039760409873
GO:0050671	positive regulation of lymphocyte proliferation	0.0207039760409873
GO:0050864	regulation of B cell activation	0.0210305022186636
GO:0004715	non-membrane spanning protein tyrosine kinase activity	0.0211068529752396
GO:0002764	immune response-regulating signal transduction	0.0211068529752396
GO:0045727	positive regulation of translation	0.0219656936642009
GO:0043406	positive regulation of MAP kinase activity	0.022118127185431
GO:0042129	regulation of T cell proliferation	0.022118127185431
GO:0050789	regulation of biological process	0.022118127185431
GO:0031328	positive regulation of cellular biosynthetic process	0.022118127185431
GO:0050870	positive regulation of T cell activation	0.022118127185431
GO:0007254	JNK cascade	0.022118127185431
GO:0031098	stress-activated protein kinase signaling pathway	0.0234109295651135
GO:0042035	regulation of cytokine biosynthetic process	0.0244154030996145
GO:0007242	intracellular signaling cascade	0.0244154030996145
GO:0033238	regulation of amine metabolic process	0.0244154030996145
GO:0001932	regulation of protein amino acid phosphorylation	0.0244154030996145
GO:0006521	regulation of amino acid metabolic process	0.0244154030996145
GO:0032944	regulation of mononuclear cell proliferation	0.0244154030996145
GO:0009891	positive regulation of biosynthetic process	0.0244154030996145
GO:0005089	Rho guanyl-nucleotide exchange factor activity	0.0244154030996145
GO:0050670	regulation of lymphocyte proliferation	0.0244154030996145
GO:0042098	T cell proliferation	0.0244154030996145
GO:0042325	regulation of phosphorylation	0.0244154030996145
GO:0051174	regulation of phosphorus metabolic process	0.0244154030996145
GO:0019220	regulation of phosphate metabolic process	0.0244154030996145
GO:0018212	peptidyl-tyrosine modification	0.0244154030996145
GO:0018108	peptidyl-tyrosine phosphorylation	0.0244154030996145
GO:0035023	regulation of Rho protein signal transduction	0.0244154030996145
GO:0065007	biological regulation	0.0247893561859587
GO:0005088	Ras guanyl-nucleotide exchange factor activity	0.0250240540445856
GO:0042089	cytokine biosynthetic process	0.0250240540445856
GO:0043405	regulation of MAP kinase activity	0.0250240540445856
GO:0042107	cytokine metabolic process	0.0250240540445856
GO:0051251	positive regulation of lymphocyte activation	0.0250240540445856
GO:0030217	T cell differentiation	0.0250240540445856
GO:0050863	regulation of T cell activation	0.0256263324847738
GO:0045055	regulated secretory pathway	0.0258165339542977
GO:0009967	positive regulation of signal transduction	0.0260035735278824
GO:0016485	protein processing	0.0261875283273319
GO:0006633	fatty acid biosynthetic process	0.0271526124222108
GO:0051247	positive regulation of protein metabolic process	0.0277130867422621
GO:0043235	receptor complex	0.0277685661527504
GO:0016053	organic acid biosynthetic process	0.0277685661527504
GO:0046394	carboxylic acid biosynthetic process	0.0277685661527504
GO:0032943	mononuclear cell proliferation	0.0277685661527504
GO:0046651	lymphocyte proliferation	0.0277685661527504
GO:0002253	activation of immune response	0.0286690324283054
GO:0007266	Rho protein signal transduction	0.0295554908748011
GO:0045860	positive regulation of protein kinase activity	0.0301621843115793
GO:0051249	regulation of lymphocyte activation	0.0301621843115793
GO:0051049	regulation of transport	0.0301621843115793
GO:0006887	exocytosis	0.0301621843115793
GO:0042113	B cell activation	0.0301621843115793
GO:0005057	receptor signaling protein activity	0.0301621843115793
GO:0050865	regulation of cell activation	0.0301621843115793
GO:0003001	generation of a signal involved in cell-cell signaling	0.0302932956542625
GO:0033674	positive regulation of kinase activity	0.0304225093778854
GO:0051347	positive regulation of transferase activity	0.0305498655750622
GO:0030098	lymphocyte differentiation	0.0313536373068666
GO:0018193	peptidyl-amino acid modification	0.0314726101525499
GO:0050778	positive regulation of immune response	0.032258489692224
GO:0002684	positive regulation of immune system process	0.0325868790417388
GO:0002443	leukocyte mediated immunity	0.0325868790417388
GO:0001816	cytokine production	0.0325868790417388
GO:0046578	regulation of Ras protein signal transduction	0.0326933318964655
GO:0050776	regulation of immune response	0.0360259074812326
GO:0002682	regulation of immune system process	0.0364281419128311
GO:0051240	positive regulation of multicellular organismal process	0.0374612634014225
GO:0042110	T cell activation	0.0375324467736921
GO:0000165	MAPKKK cascade	0.0376026710600474
GO:0005085	guanyl-nucleotide exchange factor activity	0.0379838020690934
GO:0019932	second-messenger-mediated signaling	0.0383599100753542
GO:0051056	regulation of small GTPase mediated signal transduction	0.0387310910747586
GO:0002521	leukocyte differentiation	0.0388515427925001
GO:0045859	regulation of protein kinase activity	0.0388515427925001
GO:0006417	regulation of translation	0.0398159959926496
GO:0043549	regulation of kinase activity	0.0398685531064233
GO:0043085	positive regulation of catalytic activity	0.0400221838720998
GO:0002252	immune effector process	0.0400221838720998
GO:0051338	regulation of transferase activity	0.0400221838720998
GO:0031326	regulation of cellular biosynthetic process	0.0409492830995674
GO:0007265	Ras protein signal transduction	0.0438971363101678
GO:0005083	small GTPase regulator activity	0.0439227612578624
GO:0009889	regulation of biosynthetic process	0.044808059020721
GO:0004713	protein-tyrosine kinase activity	0.0451127122921753
GO:0006631	fatty acid metabolic process	0.0456967656666056
GO:0045045	secretory pathway	0.0496382822950629
GO:0008284	positive regulation of cell proliferation	0.0496382822950629

Relative expression of the co-expression cluster over median <br>Analyst:

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Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>

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Cell Type

Ontology term	p-value	n
common myeloid progenitor	7.74e-07	19

Uber Anatomy

Ontology term	p-value	n
bone marrow	5.10e-11	16
bone element	5.18e-10	22
skeletal element	5.18e-10	22
skeletal system	5.18e-10	22
hemolymphoid system	3.14e-09	48
immune system	3.14e-09	48
hematopoietic system	4.31e-08	45
blood island	4.31e-08	45
musculoskeletal system	5.60e-07	32

TFBS overrepresentation<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

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Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
{{{tfbs_overrepresentation_jaspar}}}